PMID: 8587145Dec 1, 1995Paper

Evolution of the active sequences of the HpaI short interspersed elements

Journal of Molecular Evolution
Y KidoN Okada

Abstract

Ninety-nine members of the salmonid HpaI and AvaIII families of short interspersed repetitive elements (SINEs) were aligned and a general consensus sequence was deduced. The presence of 26 correlated changes in nucleotides (diagnostic nucleotides) from those in the consensus sequence allowed us to divide the members of the HpaI family into 12 subfamilies and those of the AvaIII family into two subfamilies. On the basis of the average sequence divergences and the phylogenetic distributions of the subfamilies, the relative antiquity of the subfamilies and the process of sequential changes in the respective source sequences were inferred. Despite the higher mutation rates of CG dinucleotides in individual dispersed members, no hypermutability of CG positions was observed in changes in the source sequences. This result suggests that sequences of SINEs located in a nonmethylated or hypomethylated genomic region could have been selected as source sequences for retroposition and/or that some CG sites are the parts of recognition sequences of retropositional machineries.

Citations

Feb 2, 2000·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·A M Shedlock, N Okada
Jan 1, 1995·Virus Genes·J Brosius, H Tiedge
Oct 26, 2005·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Li Yu, Ya-Ping Zhang
Feb 14, 1998·Gene·N OkadaK Ohshima
May 9, 2012·BMC Genomics·Maria A NilssonBjörn M Hallström
Aug 7, 2002·Journal of Molecular Biology·Neva WestPrescott Deininger
Jul 6, 2001·The Plant Journal : for Cell and Molecular Biology·P ArnaudJ M Deragon
Dec 17, 2005·Gene·Hiroko Kawagoe-TakakiNorihiro Okada
Nov 7, 2002·Cell·Masaki Kajikawa, Norihiro Okada
Dec 31, 2003·The Korean Journal of Parasitology·Young-An Bae, Yoon Kong
Mar 11, 2000·Molecular Biology and Evolution·J Costas, H Naveira

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